gem tbz2 don't has the gem-mappability module

[shiyi-pan]

Hi, I downloaded the GEM-binaries-Linux-x86_64-core_i3-20121106-022124.tbz2 as you described but when I decompression it ,here is the file in it:

gem-2-sam gem-indexer gem-indexer_fasta2meta+cont gem-indexer.man gem-map-2-map.man gem-mapper.man gem-2-sam.man gem-indexer_bwt-dna gem-indexer_generate gem-map-2-map gem-mapper LICENSE

It seems doesn't have the module gem-mappability and gem-2-wig and so on that needed in TADbit workflow. could you tell me how to get these module ? thank you very much .

[david-castillo]

Hi,

You will need the gem-mappability if you want to normalize using OneD. In that case install the version suggested in the doc:

http://3dgenomes.github.io/TADbit/install.html#gem-mapper

Regards

David

[shiyi-pan]

Thank you for your reply, David. I have download the gem-mapper from the link at the doc but there is no module named wigToBigWig and bigWigToBedGraph . I find in USUC website there are two moudles named wigBigToWig and bigWigToBedGraph . they are same or not ?